RetrogeneDB ID: retro_ttru_1782

Retrocopy location

• Organism: Dolphin (Tursiops truncatus)
• Coordinates: scaffold_91377:28006..28329(-)
• Located in intron of: ENSTTRG00000013638

Retrocopy information

• Ensembl ID: None
• Aliases: None
• Status: NOVEL

Parental gene information

• Parental gene symbol: LAMTOR2
• Ensembl ID: ENSTTRG00000013344
• Aliases: None
• Description: late endosomal/lysosomal adaptor, MAPK and MTOR activator 2 [Source:HGNC Symbol;Acc:29796]

Sequence

>retro_ttru_1782
ATGCTGCGTCCCAAGGCTTTGACCCAGGTGCTAAGCCAGGCCAACACTGGAGGCATCCAGAGCACCCTGCTGCTGAATAA
CAAGGGATCTCTGTTGGCCTGCTCCGGTTACGGGGATACAGACGCCCGGGTCACCGCTGCCATCACCAGTAACATCTGGG
CGGCCTACGACCGGAATGGGAACCAAGCCTTAATGAAGACAATCTCAAATTCATCCTCATGGACTGCATGGAGGGCCGGG
TAGCCATCACTCGAGTGGCCAACCTTCCACTGTGCATGTATGCCAAGGAGACTGTTGGCTTCGGAATGCTCAAGGCCAAG
GCC

Alignment

ORF - retro_ttru_1782 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 93.58 %
• Parental protein coverage: 72. %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MLRPKALTQVLSQANTGGVQSTLLLNNEGSLLAYSGYGDTDARVTAAIASNIWAAYDRNGNQA-FNEDNL
          MLRPKALTQVLSQANTGG.QSTLLLNN.GSLLA.SGYGDTDARVTAAI.SNIWAAYDRNGNQA..NEDNL
Retrocopy MLRPKALTQVLSQANTGGIQSTLLLNNKGSLLACSGYGDTDARVTAAITSNIWAAYDRNGNQA<LNEDNL

Parental  KFILMDCMEGRVAITRVANLLLCMYAKETVGFGMLKAKA
          KFILMDCMEGRVAITRVANL.LCMYAKETVGFGMLKAKA
Retrocopy KFILMDCMEGRVAITRVANLPLCMYAKETVGFGMLKAKA

Legend:

• *: Stop codon
• >: Forward frameshift by one nucleotide
• <: Reverse frameshift by one nucleotide

Expression

RNA-Seq

Tursiops truncatus was not studied using RNA-Seq expression data.

ChIP-Seq

Tursiops truncatus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_ttru_1782 retrocopy.

TSS

Tursiops truncatus was not studied using FANTOM5 data.

Lab

retro_ttru_1782 was not experimentally validated.

Homology

Retrocopy orthology:

Tursiops truncatus does not belong to any of the species groups (eutheria, teleost or neognath), studied for retrocopy-based homology. For more information about studied groups, please go to help section.

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Parental genes homology:

Parental genes homology involve 8 parental genes, and 11 retrocopies.

Species	Parental gene accession	Retrocopies number
Equus caballus	ENSECAG00000009193	1 retrocopy	retro_ecab_629,
Felis catus	ENSFCAG00000028596	1 retrocopy	retro_fcat_872,
Myotis lucifugus	ENSMLUG00000023871	1 retrocopy	retro_mluc_237,
Mus musculus	ENSMUSG00000028062	1 retrocopy	retro_mmus_878,
Otolemur garnettii	ENSOGAG00000016953	2 retrocopies	retro_ogar_2919, retro_ogar_910,
Pteropus vampyrus	ENSPVAG00000010328	1 retrocopy	retro_pvam_748,
Rattus norvegicus	ENSRNOG00000019908	3 retrocopies	retro_rnor_1037, retro_rnor_2493, retro_rnor_847,
Tursiops truncatus	ENSTTRG00000013344	1 retrocopy	retro_ttru_1782 ,